Locus 2870

Sequence ID	3L_DroMel_CAF1
Location	8,200,369 – 8,200,508
Length	139
Max. P	0.663907

overview

Window 3

Location	8,200,369 – 8,200,483
Length	114
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	79.85
Mean single sequence MFE	-26.29
Consensus MFE	-17.77
Energy contribution	-18.10
Covariance contribution	0.33
Combinations/Pair	1.06
Mean z-score	-1.42
Structure conservation index	0.68
SVM decision value	0.27
SVM RNA-class probability	0.663907
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8200369 114 + 23771897
UUCGGC----UCCAACGGACUGUUUAAUUUACGCGCUGCUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGGCCUCGAGCAGCGGCUUCAAAGAUAUAGA
((((..----.....))))((((.........((((((((..........(((((..((((......))))..))).))(........)......)))))).)).........)))). ( -23.47)
>DroVir_CAF1 31055 102 + 1
UCCUAC----UCCUUCGGGCUGUUUAAUUUACGCGCUGCUAUUAUUUUAAUCUUUUGCGCAACA-ACAGCGUGAAAUGACUUUCACCUGGCCUCUUGCUUUGGGUUU-----------
.((((.----......((((............((((....................))))....-.(((.((((((....))))))))))))).......))))...----------- ( -22.89)
>DroPse_CAF1 28054 110 + 1
UCCAGC----UCCAACGGGCUGUUUAAUUUACGCGCUGCUAUUAUUUUAAUCUUUUGCGCUACACCCAGCGUGAAAUGACUUUCACCUGGCCCCG-GCGCCGGCCCCC-UGCUAUG--
...(((----......((((((..........((...)).................(((((....((((.((((((....))))))))))....)-))))))))))..-.)))...-- ( -31.10)
>DroMoj_CAF1 26768 106 + 1
UGCUGCUCGGUCUUUCUGGCUGUUUAAUUUACGCGCUGCUAUUAUUUUAAUCUUUUGCGCUACA-ACAGCGUGAAAUGACUUUCACCUGGCCUUUUGCUUCUGCUCU-----------
.((.((..((((......((((((.....((.((((....................)))))).)-)))))((((((....))))))..))))....))....))...----------- ( -22.55)
>DroAna_CAF1 26801 98 + 1
UUCGGC----UCCAACGGGCUGUUUAAUUUACGCGCAGCUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGCCCCCAGG-ACC---------------CA
...((.----(((...((((............((((((..((((...))))...)))))).......((.((((((....))))))))))))...))-).)---------------). ( -26.60)
>DroPer_CAF1 29947 110 + 1
UCCAGC----UCCAACGGGCUGUUUAAUUUACGCGCUGCUAUUAUUUUAAUCUUUUGCGCUACACCCAGCGUGAAAUGACUUUCACCUGGCCCCG-GCGCCGGCCCCC-UGCUAUG--
...(((----......((((((..........((...)).................(((((....((((.((((((....))))))))))....)-))))))))))..-.)))...-- ( -31.10)
>consensus
UCCAGC____UCCAACGGGCUGUUUAAUUUACGCGCUGCUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGGCCCCG_GCACCGGCUCC___________
................((((............((((....................))))......(((.((((((....)))))))))))))......................... (-17.77 = -18.10 +   0.33)

alignment

secondary structure

dotplot

Window 4

Location	8,200,403 – 8,200,508
Length	105
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	78.41
Mean single sequence MFE	-31.25
Consensus MFE	-17.28
Energy contribution	-17.27
Covariance contribution	-0.01
Combinations/Pair	1.25
Mean z-score	-1.68
Structure conservation index	0.55
SVM decision value	-0.00
SVM RNA-class probability	0.533374
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8200403 105 + 23771897
CUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGGCCUCGAGCAGCGGCUUCAAAGAUAUAGAAGCUAUAGC------UCCAAGUCGGGGUAGC
((((........(((((..((((......))))..))).))......((((((...((((.(..(((((.........)))))..).))------))...)))))))))). ( -32.30)
>DroPse_CAF1 28088 106 + 1
CUAUUAUUUUAAUCUUUUGCGCUACACCCAGCGUGAAAUGACUUUCACCUGGCCCCG-GCGCCGGCCCCC-UGCUAUG---GUUACAACUACGGUUAAGGCUCGGGGUAGA
..................(((((....((((.((((((....))))))))))....)-))))..(((((.-.(((..(---....)(((....)))..)))..)))))... ( -33.90)
>DroEre_CAF1 31353 111 + 1
CUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGGCCCCGAGCACCGACUUCAAAGAUAUAGAAGCUAUAGCUUCGGCUCCAAGUUGGGUUGGC
............(((((..((((......))))..))).))...(((((..((...((((...(....).........(((((....))))).))))...))..)).))). ( -29.30)
>DroYak_CAF1 28785 111 + 1
CUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGGCCCCGAGCACCGGCUUCAAAGAUAUAGAAGCUAUAGCUUCGACUCCAAGUUGGGGUGGC
....................(((.....(((.((((((....)))))))))(((((((((...((((((.........))))))...)))).(((.....))))))))))) ( -30.50)
>DroAna_CAF1 26835 95 + 1
CUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGCCCCCAGG-ACC---------------CAAGCUGUAGCUCCAGCUUCAAGUUGGGGUGGC
............(((((..((((......))))..))).)).......(..((((...(-((.---------------.((((((......))))))...)))))))..). ( -27.50)
>DroPer_CAF1 29981 106 + 1
CUAUUAUUUUAAUCUUUUGCGCUACACCCAGCGUGAAAUGACUUUCACCUGGCCCCG-GCGCCGGCCCCC-UGCUAUG---GUUACAACUACGGUGAAGGCUCGGGGUAGA
..................(((((....((((.((((((....))))))))))....)-))))..(((((.-.(((.((---....))((....))...)))..)))))... ( -34.00)
>consensus
CUAUUAUUUUAAUCUUUUGCGCUACACACAGCGUGAAAUGACUUUCACCUGGCCCCGAGCACCGGCUUCA_AGAUAUAGAAGCUAUAGCUACGGCUCCAAGUCGGGGUAGC
............(((((..((((......))))..))).))..........(((((((((....))...............((....))............)))))))... (-17.28 = -17.27 +  -0.01)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:49 2006